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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
229
ChIP-seq
150
total RNA-seq
100
single cell RNA-seq
82
ATAC-seq
20
DNase-seq
8
Hi-C
2
small RNA-seq
1
pCHi-C
Assay category
252
Transcription
229
DNA binding
102
DNA accessibility
8
3D chromatin structure
Target of assay
212
histone
212
histone modification
108
broad histone mark
104
narrow histone mark
10
RNA binding protein
10
control
10
transcription factor
1
chromatin remodeller
Date released
184
May, 2021
90
May, 2020
72
September, 2018
48
July, 2018
46
August, 2017
43
April, 2018
40
June, 2019
October, 2019
22
July, 2019
9
November, 2017
6
November, 2020
5
December, 2019
5
September, 2017
4
May, 2019
3
August, 2018
3
August, 2021
3
February, 2021
3
June, 2018
3
October, 2022
2
October, 2018
1
March, 2020
Available data
573
bigWig
549
bam
267
bed narrowPeak
250
tsv
226
fastq
99
tagAlign
89
bigBed narrowPeak
38
bed broadPeak
38
bigBed broadPeak
28
bed bed3+
bed bedMethyl
10
bigBed bedMethyl
4
bedpe bed3+
4
hdf5
4
hic
3
cool
1
bed bed3
Organism
592
Homo sapiens
Biosample type
1582
tissue
592
primary cell
510
cell line
289
in vitro differentiated cells
3
stem cell
Organ
196
epithelium
185
pancreas
33
connective tissue
20
brain
14
kidney
14
vasculature
11
liver
11
musculature of body
9
blood vessel
9
heart
3
eye
2
adipose tissue
2
artery
1
pericardium
1
vein
Project
409
AMP
180
T1D
3
HPAP
Genome assembly (visualization)
592
hg19
514
GRCh38
Lab
374
AMP-T2D consortium
215
Kyle Gaulton, UCSD
3
Klaus Kaestner, Upenn
Audit category:
38
inconsistent ontology term
3
audit script error
Audit category:
44
missing controlled_by
Audit category:
5
inconsistent control read length
2
inconsistent assembly
1
inconsistent control run_type
files.file_type!
bed bedMethyl
bedpe
month_released!
October, 2019
BIOSAMPLE
ASSAY
592 results
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ChIP-seq
total RNA-seq
single cell RNA-seq
ATAC-seq
DNase-seq
Hi-C
small RNA-seq
pCHi-C
primary cell
monocyte
84
53
15
CD8-positive, alpha-beta T cell
33
4
2
pancreatic beta cell
7
10
12
7
1
pancreatic alpha cell
7
10
12
6
1
pancreatic ductal cell
13
4
10
4
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